Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A1 F2 I207 R1
|
218 |
45.0 |
2482936 |
97.1% |
2410930 |
86.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,230,259 |
C→T |
intergenic (‑86/‑135) |
nhaB ← / → fadR |
Na(+)/H(+) antiporter NhaB/fatty acid metabolism transcriptional regulator FadR |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,230,259 | 0 | C | T | 100.0%
| 127.8
/ NA
| 33 | intergenic (‑86/‑135) | nhaB/fadR | Na(+)/H(+) antiporter NhaB/fatty acid metabolism transcriptional regulator FadR |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (12/21); total (12/21) |
GTTTCCCTTACCTTACAAATAATCAATGATGTTTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTCTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCCTC > NZ_CP009273/1230178‑1230345
|
gTTTCCCTTACCTTACAAATAATCAATGATGTTTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGt > 2:610576/1‑90 (MQ=255)
tttCCCTTACCTTACAAATAATCAATGATGTTTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTc < 1:494700/90‑1 (MQ=255)
ttCCCTTACCTTACAAATAATCAATGATGTTTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCa > 2:1084227/1‑90 (MQ=255)
cccTTACCTTACAAATAATCAATGATGTTTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAg < 2:881537/90‑1 (MQ=255)
cccTTACCTTACAAATAATCAATGATGTTTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAg < 1:1141688/90‑1 (MQ=255)
atCAATGATGTTTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGaa < 1:515921/90‑1 (MQ=255)
atgatgTTTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATg > 2:737342/1‑90 (MQ=255)
tgatgTTTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGa < 1:470037/90‑1 (MQ=255)
ttttATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCtt > 2:850132/1‑90 (MQ=255)
aaaCGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCtttt > 1:508651/1‑90 (MQ=255)
aaaGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTtcttct > 1:923547/1‑90 (MQ=255)
cTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCttttt < 1:1053303/90‑1 (MQ=255)
tAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGt > 1:714279/1‑90 (MQ=255)
tAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGC‑GAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTc > 2:120074/1‑90 (MQ=255)
gTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCt < 2:776217/90‑1 (MQ=255)
caggcaggAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTAt > 2:907827/1‑90 (MQ=255)
caggcaggAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTAt > 2:781314/1‑90 (MQ=255)
aggAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCg < 1:851148/90‑1 (MQ=255)
aggAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCg < 1:1048342/90‑1 (MQ=255)
gAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTa < 2:338309/90‑1 (MQ=255)
gAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTa > 2:972105/1‑90 (MQ=255)
aGGCAAGTTTTGATAGTCAAGGGGATAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCg > 1:724276/1‑83 (MQ=255)
aGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCg < 2:724276/83‑1 (MQ=255)
aGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAg < 2:982096/90‑1 (MQ=255)
aGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAg < 2:513186/90‑1 (MQ=255)
aGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAg < 2:1136/90‑1 (MQ=255)
ggCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGc < 1:951711/90‑1 (MQ=255)
cAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGccc < 2:588335/90‑1 (MQ=255)
aaGTTTTGATAGTCAAGGGGAAAGAGATGC‑GAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCctc < 1:120074/90‑1 (MQ=255)
aGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCctc < 1:907827/90‑1 (MQ=255)
aGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCctc < 1:850132/90‑1 (MQ=255)
aGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCctc < 1:790293/90‑1 (MQ=255)
aGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCctc < 1:536833/90‑1 (MQ=255)
|
GTTTCCCTTACCTTACAAATAATCAATGATGTTTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTCTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCCTC > NZ_CP009273/1230178‑1230345
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TTTCCCTTACCTTACAAATAATCAATGATGTTTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTCTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCCTCTGGTATGATGA > NZ_CP009273/1230179‑1230356
|
TTTCCCTTACCTTACAAATAATCAATGATGTTTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAG < SRR3722089.500563/100‑1 (MQ=60)
CCCTTACCTTACAAATAATCAATGATGTTTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGA < SRR3722089.1159051/100‑1 (MQ=60)
ATCAATGATGTTTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCT < SRR3722089.521977/100‑1 (MQ=60)
TGATGTTTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATC < SRR3722089.475655/100‑1 (MQ=60)
TTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTT > SRR3722089.514642/1‑100 (MQ=60)
GTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCT > SRR3722089.937018/1‑100 (MQ=60)
ACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGT > SRR3722089.723568/1‑100 (MQ=60)
CTTAACGGTCAGGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATC < SRR3722089.1069103/100‑1 (MQ=60)
GGCAGGAGTGAGGCAAGTTTTGATAGTCAAGGGGATAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAG > SRR3722089.733701/1‑100 (MQ=60)
AGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCC < SRR3722089.1064056/100‑1 (MQ=60)
AGGAGTGAGGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCC < SRR3722089.863259/100‑1 (MQ=60)
GGCAAGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCCTCTGGTAT < SRR3722089.965689/100‑1 (MQ=60)
AAGTTTTGATAGTCAAGGGGAAAGAGATGC‑GAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCCTCTGGTATGATG < SRR3722089.121543/100‑1 (MQ=60)
AGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCCTCTGGTATGATG > SRR3722089.788025/1‑100 (MQ=60)
AGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCCTCTGGTATGATG < SRR3722089.801142/100‑1 (MQ=60)
AGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCCTCTGGTATGATG < SRR3722089.862224/100‑1 (MQ=60)
AGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCCTCTGGTATGATG < SRR3722089.543087/100‑1 (MQ=60)
AGTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCCTCTGGTATGATG < SRR3722089.921024/100‑1 (MQ=60)
GTTTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCCTCTGGTATGATGA > SRR3722089.274729/1‑100 (MQ=60)
|
TTTCCCTTACCTTACAAATAATCAATGATGTTTTTATGTTTAAACGCAAAGCTTAACGGTCAGGCAGGAGTGAGGCAAGTCTTGATAGTCAAGGGGAAAGAGATGCGGAAAATGAAGCCTTGATCCCTTTTTCTTCTTTTTGTCTGCTATCAGCGTAGTTAGCCCTCTGGTATGATGA > NZ_CP009273/1230179‑1230356
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
